Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctctctctgtctctctctttctcacacacacacgcacacacctgcacttacaaatctaatttatttgccttaagtaagagcaacaagaaaaaa...

Basic information

species Glycine max
transcript GLYMA20G33080.1
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G33080.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv13s0074g00150.t01 (Vitis vinifera), 5'ss of exon 20
CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctctctctgtctctctct-----ttctcacacacacacgcacacacc----tgcacttacaaatctaatttatttgccttaagtaagagcaacaagaaaaaa
|||||||||| | |||||||||||||| ||| | || ||||| ||||||||||| || ||||| |||||||||||| |  ||   |      ||  ||  |   | |   ||||     ||   |||   | ||  | ||| |  ||    |||       |      | 
CATTTCAAACCTGGGAATGTTTCCTGTTGATCACTTCTGTGCAATTATAAACCCTCCACAGgtactttctctctcttttcctaattaaggactcgaacgaaactaagattacactaagttgtcattattgagcttttgtatctctctggtttaatgctgttatcttgcag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|27426899|gb|CA938419.1|CA938419
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|8403681|gb|BE059377.1|BE059377
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|6964563|gb|AW433256.1|AW433256
EST:     GGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: GGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|6227678|gb|AW156277.1|AW156277
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|192310210|gb|FK000690.1|FK000690
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAAC-AATTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|51344360|gb|CO985093.1|CO985093
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|57575389|gb|CX548364.1|CX548364
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|209716666|gb|BW654299.1|BW654299
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|120532018|gb|EH260151.1|EH260151
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|19346936|gb|BM891747.1|BM891747
EST:     AAATTTTGTGCTATTATAAACCCCCCTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: AAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
EST: gi|58023434|gb|CX710175.1|CX710175
EST:     TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCTTCAG                         GCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT
genomic: TAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctc ... tttgctgcagGCTTGCATTCTTGCTGTAGGGAGAGGCAACAAAGTTGTGGAACCAGTAATT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAGgttctttctctctctgtctctctctttctcacacacacacgcacacacctgcacttacaaatctaatttatttgccttaagtaagagcaacaagaaaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaaa